8J8P

Structure of the four-component Paf1 complex from Saccharomyces eubayanus


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.70 Å
  • R-Value Free: 0.263 
  • R-Value Work: 0.225 
  • R-Value Observed: 0.227 

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This is version 1.1 of the entry. See complete history


Literature

Structural Basis of the Transcriptional Elongation Factor Paf1 Core Complex from Saccharomyces eubayanus .

Qin, Y.Zhou, Y.Cao, Y.Ren, Y.Deng, P.Jiang, J.Wang, Z.

(2023) Int J Mol Sci 24

  • DOI: https://doi.org/10.3390/ijms24108730
  • Primary Citation of Related Structures:  
    8J8P, 8J8Q

  • PubMed Abstract: 

    The multicomponent polymerase associated factor 1 (Paf1) complex (PAF1C) is an important transcription elongation factor that upregulates RNA polymerase II-mediated genome-wide transcription. PAF1C can regulate transcription through direct association with the polymerase or by impacting the chromatin structure epigenetically. In recent years, significant progress has been made in understanding the molecular mechanisms of PAF1C. However, high-resolution structures that can clarify the interaction details among the components of the complex are still needed. In this study, we evaluated the structural core of the yeast PAF1C containing the four components Ctr9, Paf1, Cdc73 and Rtf1 at high resolution. We observed the interaction details among these components. In particular, we identified a new binding surface of Rtf1 on PAF1C and found that the C-terminal sequence of Rtf1 dramatically changed during evolution, which may account for its different binding affinities to PAF1C among species. Our work presents a precise model of PAF1C, which will facilitate our understanding of the molecular mechanism and the in vivo function of the yeast PAF1C.


  • Organizational Affiliation

    Key Laboratory of Cell Proliferation and Regulation Biology of Ministry of Education, College of Life Sciences, Beijing Normal University, 19 Xinjiekouwai Avenue, Beijing 100875, China.


Macromolecules
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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
CTR9-like proteinA [auth C]908Saccharomyces eubayanusMutation(s): 0 
Gene Names: DI49_2263
UniProt
Find proteins for A0A0L8RHL9 (Saccharomyces eubayanus)
Explore A0A0L8RHL9 
Go to UniProtKB:  A0A0L8RHL9
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A0L8RHL9
Sequence Annotations
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  • Reference Sequence
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
CDC73-like proteinB [auth A]81Saccharomyces eubayanusMutation(s): 0 
Gene Names: DI49_3914
UniProt
Find proteins for A0A0L8RF82 (Saccharomyces eubayanus)
Explore A0A0L8RF82 
Go to UniProtKB:  A0A0L8RF82
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UniProt GroupA0A0L8RF82
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  • Reference Sequence
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
PAF1-like proteinC [auth P]111Saccharomyces eubayanusMutation(s): 0 
Gene Names: DI49_1302
UniProt
Find proteins for A0A0L8RM45 (Saccharomyces eubayanus)
Explore A0A0L8RM45 
Go to UniProtKB:  A0A0L8RM45
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UniProt GroupA0A0L8RM45
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  • Reference Sequence
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
RTF1-like proteinD [auth R]77Saccharomyces eubayanusMutation(s): 0 
Gene Names: DI49_1738
UniProt
Find proteins for A0A0L8RIY1 (Saccharomyces eubayanus)
Explore A0A0L8RIY1 
Go to UniProtKB:  A0A0L8RIY1
Entity Groups  
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UniProt GroupA0A0L8RIY1
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.70 Å
  • R-Value Free: 0.263 
  • R-Value Work: 0.225 
  • R-Value Observed: 0.227 
  • Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 71.775α = 90
b = 88.48β = 97.272
c = 127.775γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
HKL-2000data reduction
HKL-2000data scaling
PHENIXphasing

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Natural Science Foundation of China (NSFC)China31870725
National Natural Science Foundation of China (NSFC)China32125008

Revision History  (Full details and data files)

  • Version 1.0: 2023-05-24
    Type: Initial release
  • Version 1.1: 2023-06-14
    Changes: Database references